HEAD ======= >>>>>>> 2f1035ad74f18d20708647ab05d71ebd8e7fe046 <<<<<<< HEAD ======= >>>>>>> 2f1035ad74f18d20708647ab05d71ebd8e7fe046
geo_name_list = c("GSE129166", "GSE34748", "GSE51675", "GSE15296", "GSE46474", "GSE50084")
geo_list = c(getGEO(filename="Data/GSE129166_series_matrix.txt.gz"), getGEO(filename="Data/GSE34748_series_matrix.txt.gz"), getGEO(filename="Data/GSE51675_series_matrix.txt.gz"), getGEO(filename="Data/GSE15296_series_matrix.txt.gz"), getGEO(filename="Data/GSE46474_series_matrix.txt.gz"), getGEO(filename="Data/GSE50084_series_matrix.txt.gz"))
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Using locally cached version of GPL570 found here:
/var/folders/81/4fc96fh52150fkrp33z0kklh0000gp/T//RtmpZiAUT6/GPL570.soft.gz
Using locally cached version of GPL570 found here:
/var/folders/81/4fc96fh52150fkrp33z0kklh0000gp/T//RtmpZiAUT6/GPL570.soft.gz
Using locally cached version of GPL570 found here:
/var/folders/81/4fc96fh52150fkrp33z0kklh0000gp/T//RtmpZiAUT6/GPL570.soft.gz
=======
Using locally cached version of GPL570 found here:
C:\Users\lmcca\AppData\Local\Temp\RtmpYzuDYu/GPL570.soft.gz
Using locally cached version of GPL570 found here:
C:\Users\lmcca\AppData\Local\Temp\RtmpYzuDYu/GPL570.soft.gz
Using locally cached version of GPL570 found here:
C:\Users\lmcca\AppData\Local\Temp\RtmpYzuDYu/GPL570.soft.gz
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for(geo in geo_list) {
print(fData(geo))
print(names(which(colSums(is.na(fData(geo)))>0)))
}
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character(0)
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character(0)
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[1] "GENE" "TIGR_ID"
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character(0)
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character(0)
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character(0)
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All gse have a gene symbol column which can be used to match records except for the last one, GSE50084 which has the gene as the 2nd listed element under gene_assignment, and GSE51675 which is missing all of its gene info.
=======All gse have a gene symbol column which can be used to match records except for the last one, GSE50084 which has the gene as the 2nd listed element under gene_assignment, and GSE51675 which is missing all of its gene info.
>>>>>>> 2f1035ad74f18d20708647ab05d71ebd8e7fe046for(geo in geo_list) {
print(pData(geo))
print(names(which(colSums(is.na(pData(geo)))>0)))
}
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character(0)
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character(0)
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character(0)
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character(0)
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character(0)
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character(0)
for (geo in geo_list) {
print(data.frame(t(exprs(geo))))
print(names(which(colSums(is.na(data.frame(t(exprs(geo)))))>0)))
}
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